sinarueeger / G2G-EBV-figures

Creating all the figures and tables for the manuscript.

This is basically

• Figure 1 (illustration)
• Figure 2 + S1 + S2a + S2b + S3 + S4 + S5 (report/figure-tables.R)
• Table 1 (report/figure-tables.R)
• Figure S6 + S7 (src/results.R)
• Figure S8 (by hand locuszoomplot)

Workflow

• store summary stats on Zenodo
• have a file for each figure and table prepared

Usage

1. Install holepunch with remotes::install_github("karthik/holepunch")
2. Then run the following code:

library(holepunch)
write_compendium_description(package = "Your compendium name", 
                             description = "Your compendium description")
# to write a description, with dependencies listed 
# It's good practice to now go fill in the placeholder text.

write_dockerfile(maintainer = "your_name") 
# To write a dockerfile. It will automatically pick the date of the last modified file, match it to 
# that version of R and add it here. You can override this by passing r_date to some arbitrary date
# (but one for which a R version exists).

generate_badge()
# This generates a badge for your readme.

# At this time 🙌 push the code to GitHub 🙌
# If you're new to Git/GitHub, you can click the Git tab on Rstudio, then click commit to see
# all changed files/folders, including the hidden .binder folder. Give this a commmit message and push

# And click on the badge or use the function below to get the binder built ahead of time.
build_binder()
# 🤞🚀

Now, run through analysis.R till you get to a plot

Does clicking the badge launch binder for you? If not, please file an issue.